HEADER OXIDOREDUCTASE 10-JUL-13 4LMR TITLE CRYSTAL STRUCTURE OF L-LACTATE DEHYDROGENASE FROM BACILLUS CEREUS ATCC TITLE 2 14579, NYSGRC TARGET 029452 COMPND MOL_ID: 1; COMPND 2 MOLECULE: L-LACTATE DEHYDROGENASE 1; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: L-LDH 1; COMPND 5 EC: 1.1.1.27; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS CEREUS; SOURCE 3 ORGANISM_TAXID: 226900; SOURCE 4 STRAIN: ATCC 14579; SOURCE 5 GENE: BC_1924, LDH, LDH1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)CODON+RIL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: BC-PSGX3(BC) KEYWDS STRUCTURAL GENOMICS, PROTEIN STRUCTURE INITIATIVE, NYSGRC, PSI- KEYWDS 2 BIOLOGY, NEW YORK STRUCTURAL GENOMICS RESEARCH CONSORTIUM, KEYWDS 3 OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR V.N.MALASHKEVICH,J.B.BONANNO,R.BHOSLE,R.TORO,B.HILLERICH,A.GIZZI, AUTHOR 2 S.GARFORTH,A.KAR,M.K.CHAN,J.LAFLUER,H.PATEL,B.MATIKAINEN,S.CHAMALA, AUTHOR 3 S.LIM,A.CELIKGIL,G.VILLEGAS,B.EVANS,J.LOVE,A.FISER,K.KHAFIZOV, AUTHOR 4 R.SEIDEL,S.C.ALMO,NEW YORK STRUCTURAL GENOMICS RESEARCH CONSORTIUM AUTHOR 5 (NYSGRC) REVDAT 3 06-DEC-23 4LMR 1 REMARK REVDAT 2 20-SEP-23 4LMR 1 SEQADV LINK REVDAT 1 31-JUL-13 4LMR 0 JRNL AUTH V.N.MALASHKEVICH,J.B.BONANNO,R.BHOSLE,R.TORO,B.HILLERICH, JRNL AUTH 2 A.GIZZI,S.GARFORTH,A.KAR,M.K.CHAN,J.LAFLUER,H.PATEL, JRNL AUTH 3 B.MATIKAINEN,S.CHAMALA,S.LIM,A.CELIKGIL,G.VILLEGAS,B.EVANS, JRNL AUTH 4 J.LOVE,A.FISER,K.KHAFIZOV,R.SEIDEL,S.C.ALMO JRNL TITL CRYSTAL STRUCTURE OF L-LACTATE DEHYDROGENASE FROM BACILLUS JRNL TITL 2 CEREUS ATCC 14579, NYSGRC TARGET 029452 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.71 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 48772 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.164 REMARK 3 R VALUE (WORKING SET) : 0.163 REMARK 3 FREE R VALUE : 0.179 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2470 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.45 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.52 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3268 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.86 REMARK 3 BIN R VALUE (WORKING SET) : 0.2170 REMARK 3 BIN FREE R VALUE SET COUNT : 186 REMARK 3 BIN FREE R VALUE : 0.2510 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4864 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 133 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 46.24 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.08000 REMARK 3 B22 (A**2) : 3.08000 REMARK 3 B33 (A**2) : -6.16000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.038 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.031 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.098 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.036 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.967 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.963 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4956 ; 0.008 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6726 ; 1.239 ; 1.974 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 622 ; 5.366 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 222 ;37.975 ;24.865 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 818 ;15.209 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 24 ;16.429 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 770 ; 0.088 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3726 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2494 ; 2.243 ; 5.915 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3114 ; 3.638 ;79.670 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2460 ; 3.723 ; 6.536 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 3 A 314 REMARK 3 ORIGIN FOR THE GROUP (A): -11.8070 138.4510 3.6525 REMARK 3 T TENSOR REMARK 3 T11: 0.0182 T22: 0.0413 REMARK 3 T33: 0.0491 T12: -0.0048 REMARK 3 T13: -0.0122 T23: 0.0416 REMARK 3 L TENSOR REMARK 3 L11: 0.7179 L22: 0.4722 REMARK 3 L33: 0.6254 L12: -0.1331 REMARK 3 L13: 0.0562 L23: -0.1838 REMARK 3 S TENSOR REMARK 3 S11: 0.0398 S12: 0.0269 S13: -0.0343 REMARK 3 S21: -0.0733 S22: -0.0108 S23: 0.0096 REMARK 3 S31: 0.0514 S32: 0.0063 S33: -0.0290 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 3 B 314 REMARK 3 ORIGIN FOR THE GROUP (A): 17.0873 151.0202 18.0178 REMARK 3 T TENSOR REMARK 3 T11: 0.0303 T22: 0.0760 REMARK 3 T33: 0.1021 T12: -0.0171 REMARK 3 T13: 0.0074 T23: 0.0766 REMARK 3 L TENSOR REMARK 3 L11: 0.8559 L22: 1.0879 REMARK 3 L33: 0.5718 L12: -0.0091 REMARK 3 L13: -0.0776 L23: -0.3866 REMARK 3 S TENSOR REMARK 3 S11: 0.1070 S12: -0.0353 S13: 0.0736 REMARK 3 S21: 0.0079 S22: -0.1654 S23: -0.1723 REMARK 3 S31: -0.0793 S32: 0.1000 S33: 0.0584 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: U VALUES : WITH TLS ADDED HYDROGENS REMARK 3 HAVE BEEN USED IF PRESENT IN THE INPUT REMARK 4 REMARK 4 4LMR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-JUL-13. REMARK 100 THE DEPOSITION ID IS D_1000080824. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-APR-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : 0.9791 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 94016 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.450 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 7.300 REMARK 200 R MERGE (I) : 0.08100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.90 REMARK 200 R MERGE FOR SHELL (I) : 0.67400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 3PQD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 72.01 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.39 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M TRIS-HCL, PH 8.5, 3.5M SODIUM REMARK 280 FORMATE, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 41 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 3555 -Y,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X,Z+3/4 REMARK 290 5555 -X+1/2,Y,-Z+3/4 REMARK 290 6555 X,-Y+1/2,-Z+1/4 REMARK 290 7555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X,-Y,Z REMARK 290 11555 -Y+1/2,X,Z+3/4 REMARK 290 12555 Y,-X+1/2,Z+1/4 REMARK 290 13555 -X,Y+1/2,-Z+1/4 REMARK 290 14555 X+1/2,-Y,-Z+3/4 REMARK 290 15555 Y,X,-Z REMARK 290 16555 -Y+1/2,-X+1/2,-Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 88.63800 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 88.63800 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 84.48750 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 88.63800 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 42.24375 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 88.63800 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 126.73125 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 88.63800 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 126.73125 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 88.63800 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 42.24375 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 88.63800 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 88.63800 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 84.48750 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 88.63800 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 88.63800 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 84.48750 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 88.63800 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 126.73125 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 88.63800 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 42.24375 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 88.63800 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 42.24375 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 88.63800 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 126.73125 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 88.63800 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 88.63800 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 84.48750 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 300 REMARK: TETRAMERIC REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 14970 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 43260 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -84.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 265.91400 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 42.24375 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 477 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 415 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MSE A -21 REMARK 465 HIS A -20 REMARK 465 HIS A -19 REMARK 465 HIS A -18 REMARK 465 HIS A -17 REMARK 465 HIS A -16 REMARK 465 HIS A -15 REMARK 465 SER A -14 REMARK 465 SER A -13 REMARK 465 GLY A -12 REMARK 465 VAL A -11 REMARK 465 ASP A -10 REMARK 465 LEU A -9 REMARK 465 GLY A -8 REMARK 465 THR A -7 REMARK 465 GLU A -6 REMARK 465 ASN A -5 REMARK 465 LEU A -4 REMARK 465 TYR A -3 REMARK 465 PHE A -2 REMARK 465 GLN A -1 REMARK 465 SER A 0 REMARK 465 MSE A 1 REMARK 465 LYS A 2 REMARK 465 MSE B -21 REMARK 465 HIS B -20 REMARK 465 HIS B -19 REMARK 465 HIS B -18 REMARK 465 HIS B -17 REMARK 465 HIS B -16 REMARK 465 HIS B -15 REMARK 465 SER B -14 REMARK 465 SER B -13 REMARK 465 GLY B -12 REMARK 465 VAL B -11 REMARK 465 ASP B -10 REMARK 465 LEU B -9 REMARK 465 GLY B -8 REMARK 465 THR B -7 REMARK 465 GLU B -6 REMARK 465 ASN B -5 REMARK 465 LEU B -4 REMARK 465 TYR B -3 REMARK 465 PHE B -2 REMARK 465 GLN B -1 REMARK 465 SER B 0 REMARK 465 MSE B 1 REMARK 465 LYS B 2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASP A 115 42.49 -145.27 REMARK 500 ASP A 180 -63.10 -141.30 REMARK 500 TYR A 233 -29.66 -148.89 REMARK 500 THR B 13 44.55 -109.03 REMARK 500 ASP B 115 40.82 -142.57 REMARK 500 TYR B 233 -31.00 -146.56 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: NYSGRC-029452 RELATED DB: TARGETTRACK DBREF 4LMR A 1 314 UNP Q81EP4 LDH1_BACCR 1 314 DBREF 4LMR B 1 314 UNP Q81EP4 LDH1_BACCR 1 314 SEQADV 4LMR MSE A -21 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR HIS A -20 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR HIS A -19 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR HIS A -18 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR HIS A -17 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR HIS A -16 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR HIS A -15 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR SER A -14 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR SER A -13 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR GLY A -12 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR VAL A -11 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR ASP A -10 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR LEU A -9 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR GLY A -8 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR THR A -7 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR GLU A -6 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR ASN A -5 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR LEU A -4 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR TYR A -3 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR PHE A -2 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR GLN A -1 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR SER A 0 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR MSE B -21 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR HIS B -20 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR HIS B -19 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR HIS B -18 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR HIS B -17 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR HIS B -16 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR HIS B -15 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR SER B -14 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR SER B -13 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR GLY B -12 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR VAL B -11 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR ASP B -10 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR LEU B -9 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR GLY B -8 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR THR B -7 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR GLU B -6 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR ASN B -5 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR LEU B -4 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR TYR B -3 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR PHE B -2 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR GLN B -1 UNP Q81EP4 EXPRESSION TAG SEQADV 4LMR SER B 0 UNP Q81EP4 EXPRESSION TAG SEQRES 1 A 336 MSE HIS HIS HIS HIS HIS HIS SER SER GLY VAL ASP LEU SEQRES 2 A 336 GLY THR GLU ASN LEU TYR PHE GLN SER MSE LYS LYS GLY SEQRES 3 A 336 ILE ASN ARG VAL VAL LEU VAL GLY THR GLY ALA VAL GLY SEQRES 4 A 336 CYS SER TYR ALA TYR CYS MSE ILE ASN GLN ALA VAL ALA SEQRES 5 A 336 GLU GLU PHE VAL LEU VAL ASP VAL ASN GLU ALA LYS ALA SEQRES 6 A 336 GLU GLY GLU ALA MSE ASP LEU SER HIS ALA VAL PRO PHE SEQRES 7 A 336 ALA PRO ALA PRO THR ARG VAL TRP LYS GLY SER TYR GLU SEQRES 8 A 336 ASP CYS LYS ASP ALA ASP LEU VAL VAL ILE THR ALA GLY SEQRES 9 A 336 LEU PRO GLN LYS PRO GLY GLU THR ARG LEU ASP LEU VAL SEQRES 10 A 336 GLU LYS ASN ALA LYS ILE PHE LYS GLN ILE VAL ARG SER SEQRES 11 A 336 ILE MSE ASP SER GLY PHE ASP GLY ILE PHE LEU ILE ALA SEQRES 12 A 336 THR ASN PRO VAL ASP ILE LEU THR TYR VAL THR TRP LYS SEQRES 13 A 336 GLU SER GLY LEU PRO LYS GLU ARG VAL ILE GLY SER GLY SEQRES 14 A 336 THR THR LEU ASP SER ALA ARG PHE ARG TYR MSE LEU GLY SEQRES 15 A 336 GLU TYR PHE ASP ILE GLY PRO HIS ASN ILE HIS ALA TYR SEQRES 16 A 336 ILE ILE GLY GLU HIS GLY ASP THR GLU LEU PRO VAL TRP SEQRES 17 A 336 SER HIS VAL SER VAL GLY ILE GLN LYS LEU GLN THR LEU SEQRES 18 A 336 LEU GLU LYS ASP ASN THR TYR ASN GLN GLU ASP LEU ASP SEQRES 19 A 336 LYS ILE PHE ILE ASN VAL ARG ASP ALA ALA TYR HIS ILE SEQRES 20 A 336 ILE GLU ARG LYS GLY ALA THR TYR TYR GLY ILE GLY MSE SEQRES 21 A 336 SER LEU LEU ARG VAL THR LYS ALA ILE LEU ASN ASP GLU SEQRES 22 A 336 ASN SER VAL LEU THR VAL SER ALA TYR LEU GLU GLY GLN SEQRES 23 A 336 TYR GLY GLN LYS ASP VAL TYR ILE GLY VAL PRO ALA VAL SEQRES 24 A 336 LEU ASN ARG GLY GLY VAL ARG GLU ILE LEU GLU VAL GLU SEQRES 25 A 336 LEU SER GLU ASP GLU GLU LEU LYS PHE ASP HIS SER VAL SEQRES 26 A 336 GLN VAL LEU LYS GLU THR MSE ALA PRO VAL LEU SEQRES 1 B 336 MSE HIS HIS HIS HIS HIS HIS SER SER GLY VAL ASP LEU SEQRES 2 B 336 GLY THR GLU ASN LEU TYR PHE GLN SER MSE LYS LYS GLY SEQRES 3 B 336 ILE ASN ARG VAL VAL LEU VAL GLY THR GLY ALA VAL GLY SEQRES 4 B 336 CYS SER TYR ALA TYR CYS MSE ILE ASN GLN ALA VAL ALA SEQRES 5 B 336 GLU GLU PHE VAL LEU VAL ASP VAL ASN GLU ALA LYS ALA SEQRES 6 B 336 GLU GLY GLU ALA MSE ASP LEU SER HIS ALA VAL PRO PHE SEQRES 7 B 336 ALA PRO ALA PRO THR ARG VAL TRP LYS GLY SER TYR GLU SEQRES 8 B 336 ASP CYS LYS ASP ALA ASP LEU VAL VAL ILE THR ALA GLY SEQRES 9 B 336 LEU PRO GLN LYS PRO GLY GLU THR ARG LEU ASP LEU VAL SEQRES 10 B 336 GLU LYS ASN ALA LYS ILE PHE LYS GLN ILE VAL ARG SER SEQRES 11 B 336 ILE MSE ASP SER GLY PHE ASP GLY ILE PHE LEU ILE ALA SEQRES 12 B 336 THR ASN PRO VAL ASP ILE LEU THR TYR VAL THR TRP LYS SEQRES 13 B 336 GLU SER GLY LEU PRO LYS GLU ARG VAL ILE GLY SER GLY SEQRES 14 B 336 THR THR LEU ASP SER ALA ARG PHE ARG TYR MSE LEU GLY SEQRES 15 B 336 GLU TYR PHE ASP ILE GLY PRO HIS ASN ILE HIS ALA TYR SEQRES 16 B 336 ILE ILE GLY GLU HIS GLY ASP THR GLU LEU PRO VAL TRP SEQRES 17 B 336 SER HIS VAL SER VAL GLY ILE GLN LYS LEU GLN THR LEU SEQRES 18 B 336 LEU GLU LYS ASP ASN THR TYR ASN GLN GLU ASP LEU ASP SEQRES 19 B 336 LYS ILE PHE ILE ASN VAL ARG ASP ALA ALA TYR HIS ILE SEQRES 20 B 336 ILE GLU ARG LYS GLY ALA THR TYR TYR GLY ILE GLY MSE SEQRES 21 B 336 SER LEU LEU ARG VAL THR LYS ALA ILE LEU ASN ASP GLU SEQRES 22 B 336 ASN SER VAL LEU THR VAL SER ALA TYR LEU GLU GLY GLN SEQRES 23 B 336 TYR GLY GLN LYS ASP VAL TYR ILE GLY VAL PRO ALA VAL SEQRES 24 B 336 LEU ASN ARG GLY GLY VAL ARG GLU ILE LEU GLU VAL GLU SEQRES 25 B 336 LEU SER GLU ASP GLU GLU LEU LYS PHE ASP HIS SER VAL SEQRES 26 B 336 GLN VAL LEU LYS GLU THR MSE ALA PRO VAL LEU MODRES 4LMR MSE A 24 MET SELENOMETHIONINE MODRES 4LMR MSE A 48 MET SELENOMETHIONINE MODRES 4LMR MSE A 110 MET SELENOMETHIONINE MODRES 4LMR MSE A 158 MET SELENOMETHIONINE MODRES 4LMR MSE A 238 MET SELENOMETHIONINE MODRES 4LMR MSE A 310 MET SELENOMETHIONINE MODRES 4LMR MSE B 24 MET SELENOMETHIONINE MODRES 4LMR MSE B 48 MET SELENOMETHIONINE MODRES 4LMR MSE B 110 MET SELENOMETHIONINE MODRES 4LMR MSE B 158 MET SELENOMETHIONINE MODRES 4LMR MSE B 238 MET SELENOMETHIONINE MODRES 4LMR MSE B 310 MET SELENOMETHIONINE HET MSE A 24 8 HET MSE A 48 8 HET MSE A 110 8 HET MSE A 158 8 HET MSE A 238 8 HET MSE A 310 8 HET MSE B 24 8 HET MSE B 48 8 HET MSE B 110 8 HET MSE B 158 8 HET MSE B 238 8 HET MSE B 310 8 HETNAM MSE SELENOMETHIONINE FORMUL 1 MSE 12(C5 H11 N O2 SE) FORMUL 3 HOH *133(H2 O) HELIX 1 1 GLY A 14 ALA A 28 1 15 HELIX 2 2 ASN A 39 HIS A 52 1 14 HELIX 3 3 ALA A 53 ALA A 57 5 5 HELIX 4 4 SER A 67 LYS A 72 5 6 HELIX 5 5 THR A 90 SER A 112 1 23 HELIX 6 6 PRO A 124 GLY A 137 1 14 HELIX 7 7 PRO A 139 GLU A 141 5 3 HELIX 8 8 THR A 148 ASP A 164 1 17 HELIX 9 9 GLY A 166 HIS A 168 5 3 HELIX 10 10 TRP A 186 HIS A 188 5 3 HELIX 11 11 LEU A 196 LYS A 202 1 7 HELIX 12 12 ASN A 207 ASP A 220 1 14 HELIX 13 13 ASP A 220 GLY A 230 1 11 HELIX 14 14 TYR A 233 ASN A 249 1 17 HELIX 15 15 GLN A 264 GLY A 266 5 3 HELIX 16 16 SER A 292 ALA A 311 1 20 HELIX 17 17 PRO A 312 LEU A 314 5 3 HELIX 18 18 GLY B 14 GLN B 27 1 14 HELIX 19 19 ASN B 39 HIS B 52 1 14 HELIX 20 20 ALA B 53 ALA B 57 5 5 HELIX 21 21 SER B 67 LYS B 72 5 6 HELIX 22 22 THR B 90 SER B 112 1 23 HELIX 23 23 PRO B 124 GLY B 137 1 14 HELIX 24 24 PRO B 139 GLU B 141 5 3 HELIX 25 25 THR B 148 ASP B 164 1 17 HELIX 26 26 GLY B 166 HIS B 168 5 3 HELIX 27 27 TRP B 186 HIS B 188 5 3 HELIX 28 28 LEU B 196 LYS B 202 1 7 HELIX 29 29 ASN B 207 GLY B 230 1 24 HELIX 30 30 TYR B 233 ASN B 249 1 17 HELIX 31 31 GLN B 264 GLY B 266 5 3 HELIX 32 32 SER B 292 MSE B 310 1 19 SHEET 1 A 6 ARG A 62 LYS A 65 0 SHEET 2 A 6 GLU A 32 VAL A 36 1 N PHE A 33 O ARG A 62 SHEET 3 A 6 ARG A 7 VAL A 11 1 N LEU A 10 O VAL A 34 SHEET 4 A 6 LEU A 76 ILE A 79 1 O VAL A 78 N VAL A 11 SHEET 5 A 6 ILE A 117 ILE A 120 1 O LEU A 119 N VAL A 77 SHEET 6 A 6 VAL A 143 GLY A 145 1 O ILE A 144 N ILE A 120 SHEET 1 B 3 ILE A 170 HIS A 171 0 SHEET 2 B 3 SER A 190 VAL A 191 -1 O SER A 190 N HIS A 171 SHEET 3 B 3 GLN A 194 LYS A 195 -1 O GLN A 194 N VAL A 191 SHEET 1 C 2 ILE A 174 ILE A 175 0 SHEET 2 C 2 LEU A 183 PRO A 184 -1 O LEU A 183 N ILE A 175 SHEET 1 D 3 SER A 253 GLU A 262 0 SHEET 2 D 3 LYS A 268 ASN A 279 -1 O VAL A 270 N LEU A 261 SHEET 3 D 3 GLY A 282 ILE A 286 -1 O ARG A 284 N VAL A 277 SHEET 1 E 6 ARG B 62 LYS B 65 0 SHEET 2 E 6 GLU B 32 VAL B 36 1 N PHE B 33 O ARG B 62 SHEET 3 E 6 ARG B 7 VAL B 11 1 N LEU B 10 O VAL B 34 SHEET 4 E 6 LEU B 76 ILE B 79 1 O VAL B 78 N VAL B 11 SHEET 5 E 6 ILE B 117 ILE B 120 1 O LEU B 119 N VAL B 77 SHEET 6 E 6 VAL B 143 GLY B 145 1 O ILE B 144 N ILE B 120 SHEET 1 F 3 ILE B 170 HIS B 171 0 SHEET 2 F 3 SER B 190 VAL B 191 -1 O SER B 190 N HIS B 171 SHEET 3 F 3 GLN B 194 LYS B 195 -1 O GLN B 194 N VAL B 191 SHEET 1 G 2 ILE B 174 ILE B 175 0 SHEET 2 G 2 LEU B 183 PRO B 184 -1 O LEU B 183 N ILE B 175 SHEET 1 H 3 SER B 253 GLU B 262 0 SHEET 2 H 3 LYS B 268 ASN B 279 -1 O LEU B 278 N SER B 253 SHEET 3 H 3 GLY B 282 ILE B 286 -1 O ARG B 284 N VAL B 277 LINK C CYS A 23 N MSE A 24 1555 1555 1.34 LINK C MSE A 24 N ILE A 25 1555 1555 1.33 LINK C ALA A 47 N MSE A 48 1555 1555 1.32 LINK C MSE A 48 N ASP A 49 1555 1555 1.34 LINK C ILE A 109 N MSE A 110 1555 1555 1.33 LINK C MSE A 110 N ASP A 111 1555 1555 1.34 LINK C TYR A 157 N MSE A 158 1555 1555 1.33 LINK C MSE A 158 N LEU A 159 1555 1555 1.33 LINK C GLY A 237 N MSE A 238 1555 1555 1.33 LINK C MSE A 238 N SER A 239 1555 1555 1.33 LINK C THR A 309 N MSE A 310 1555 1555 1.33 LINK C MSE A 310 N ALA A 311 1555 1555 1.33 LINK C CYS B 23 N MSE B 24 1555 1555 1.33 LINK C MSE B 24 N ILE B 25 1555 1555 1.32 LINK C ALA B 47 N MSE B 48 1555 1555 1.33 LINK C MSE B 48 N ASP B 49 1555 1555 1.33 LINK C ILE B 109 N MSE B 110 1555 1555 1.33 LINK C MSE B 110 N ASP B 111 1555 1555 1.33 LINK C TYR B 157 N MSE B 158 1555 1555 1.33 LINK C MSE B 158 N LEU B 159 1555 1555 1.33 LINK C GLY B 237 N MSE B 238 1555 1555 1.33 LINK C MSE B 238 N SER B 239 1555 1555 1.33 LINK C THR B 309 N MSE B 310 1555 1555 1.31 LINK C MSE B 310 N ALA B 311 1555 1555 1.31 CISPEP 1 ASN A 123 PRO A 124 0 0.87 CISPEP 2 ASN B 123 PRO B 124 0 0.31 CRYST1 177.276 177.276 168.975 90.00 90.00 90.00 I 41 2 2 32 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.005641 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005641 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005918 0.00000